Locus 148

Sequence ID	3L_DroMel_CAF1
Location	459,288 – 459,471
Length	183
Max. P	0.977018

overview

Window 1

Location	459,288 – 459,380
Length	92
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	85.52
Mean single sequence MFE	-25.97
Consensus MFE	-16.82
Energy contribution	-16.90
Covariance contribution	0.08
Combinations/Pair	1.08
Mean z-score	-1.81
Structure conservation index	0.65
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 459288 92 - 23771897
CGGGUGCGGUUCAGGCGCAACUUUAAUUUAUGAGCUGCUC--AAAAAAA--AAAAAAAAUUUACGA------UAAUUUGUAGUUGCAGCCGAGGAUUGUCGG
((...(((((((.((((((((.....(((.((((...)))--).)))..--..........(((((------....)))))))))).)))..))))))))). ( -22.10)
>DroSec_CAF1 40301 95 - 1
CGGGUGCGGUUCAGGCGCAACUUUAAUUUAUGAGCUGCUC--AAAAAAA-----AAAAGUGUACAAUACUCGUAAUUUGUAGUUGCAGCCGAGGAUUGCCGG
...(.(((((((.(((((((((.(((.(((((((.((..(--(......-----.....))..))...))))))).))).)))))).)))..)))))))).. ( -28.50)
>DroSim_CAF1 41200 93 - 1
CGGGUGCGGUUCAGGCGCAACUUUAAUUUAUGAGCUGCUC--AAAAA-------AAAAGUGUACAAUACUCAUAAUUUGUAGUUGCAGCCGAGGAUUGCCGA
...(.(((((((.(((((((((.(((.(((((((.((..(--(....-------.....))..))...))))))).))).)))))).)))..)))))))).. ( -29.10)
>DroEre_CAF1 42222 94 - 1
CGGGUGCGGUUCAGGCGCAACUUUAAUUUAUGAGUUGCUC--AAAAAAUACAAAAAAAAAGCACAA------UAAUUUGUAGUUGCAGCCGAGGAUUGGCGG
...((.((((((.(((((((((.(((.((((....((((.--.................))))..)------))).))).)))))).)))..)))))))).. ( -22.67)
>DroYak_CAF1 41734 96 - 1
CGGGUGCGGUUCGGGCGCAACUUUAAUUUAUGAGUUGCUCACAAAAAAAACAGAAAAUGUGCACAA------UAAUUUGUAGCUGCAGCCGAGGAUUGUCGG
(((.(((((((...(((((((((........)))))))...........(((.....)))))((((------....))))))))))).)))........... ( -27.50)
>consensus
CGGGUGCGGUUCAGGCGCAACUUUAAUUUAUGAGCUGCUC__AAAAAAA__A_AAAAAGUGUACAA______UAAUUUGUAGUUGCAGCCGAGGAUUGCCGG
((...(((((((.(((((((((.........(((...)))......................((((..........)))))))))).)))..))))))))). (-16.82 = -16.90 +   0.08)

alignment

secondary structure

dotplot

Window 2

Location	459,380 – 459,471
Length	91
Sequences	5
Columns	91
Reading direction	forward
Mean pairwise identity	95.71
Mean single sequence MFE	-21.94
Consensus MFE	-21.54
Energy contribution	-21.70
Covariance contribution	0.16
Combinations/Pair	1.04
Mean z-score	-1.46
Structure conservation index	0.98
SVM decision value	1.78
SVM RNA-class probability	0.977018
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 459380 91 + 23771897
UCCAUCAAUUUUUAUUUGCGCCUUCAACUUGAGAUGUUCAAUUUUUCGGGGCUUGUCUGCCGGAAAACUGAUAUUGUUGCGCAGAUAAUGC
...........((((((((((..((.....))(((((.((.((((((((.(......).)))))))).)))))))...))))))))))... ( -23.40)
>DroSec_CAF1 40396 91 + 1
UCCAUCAAUUUUUAUUUGCGCCUUCAACUUGAGAUGUUCAAUUUUUCGGGGCUUGUCUGCCGGAAAACUGAUAUUGUUGCGCAGAUAAUUC
...........((((((((((..((.....))(((((.((.((((((((.(......).)))))))).)))))))...))))))))))... ( -23.40)
>DroSim_CAF1 41293 91 + 1
UCCAUCAAUUUUUAUUUGCGCCUUCAACUUGAGAUGUUCAAUUUUUCGGGGCUUGUCUGCCGGAAAACUGAUAUUGUUGCGCAGAUAAUUC
...........((((((((((..((.....))(((((.((.((((((((.(......).)))))))).)))))))...))))))))))... ( -23.40)
>DroEre_CAF1 42316 91 + 1
UCCAUCAAAUUUUAUUUGCGCCUUCAACUUGAGAUGCACAAUUUUUCGGGGCUUGUCUGCCGGAAAACUGAUAUUGUUGUGCAGAUAAUGU
...........((((((((((.(((.....))).....((.((((((((.(......).)))))))).))........))))))))))... ( -19.70)
>DroYak_CAF1 41830 91 + 1
UCCAUCAACUUUUAUUUGCGCCUUCAACUUGAGAUGUACAACUUUUCGGGGCUUGUCUGCCGGAAAACUGAUAUUGUUGUGCAGAUAAUGU
...........((((((((((..((.....))(((((.((..(((((((.(......).)))))))..)))))))...))))))))))... ( -19.80)
>consensus
UCCAUCAAUUUUUAUUUGCGCCUUCAACUUGAGAUGUUCAAUUUUUCGGGGCUUGUCUGCCGGAAAACUGAUAUUGUUGCGCAGAUAAUGC
...........((((((((((..((.....))(((((.((.((((((((.(......).)))))))).)))))))...))))))))))... (-21.54 = -21.70 +   0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:51 2006